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Items: 1 to 50 of 153

1.

Discovery of receptor-ligand interfaces in the immunoglobulin superfamily.

Gil N, Fajardo EJ, Fiser A.

Proteins. 2019 Jul 12. doi: 10.1002/prot.25778. [Epub ahead of print]

PMID:
31298437
2.

CCL2 mobilizes ALIX to facilitate Gag-p6 mediated HIV-1 virion release.

Ajasin DO, Rao VR, Wu X, Ramasamy S, Pujato M, Ruiz AP, Fiser A, Bresnick AR, Kalpana GV, Prasad VR.

Elife. 2019 Jun 7;8. pii: e35546. doi: 10.7554/eLife.35546.

3.

Computational Redesign of PD-1 Interface for PD-L1 Ligand Selectivity.

Shrestha R, Garrett SC, Almo SC, Fiser A.

Structure. 2019 May 7;27(5):829-836.e3. doi: 10.1016/j.str.2019.03.006. Epub 2019 Mar 28.

PMID:
30930066
4.

Substitutions that lock and unlock the proton-coupled folate transporter (PCFT-SLC46A1) in an inward-open conformation.

Aluri S, Zhao R, Lin K, Shin DS, Fiser A, Goldman ID.

J Biol Chem. 2019 May 3;294(18):7245-7258. doi: 10.1074/jbc.RA118.005533. Epub 2019 Mar 11.

PMID:
30858177
5.

Protein-protein binding supersites.

Viswanathan R, Fajardo E, Steinberg G, Haller M, Fiser A.

PLoS Comput Biol. 2019 Jan 7;15(1):e1006704. doi: 10.1371/journal.pcbi.1006704. eCollection 2019 Jan.

6.

Regulation of human glioma cell migration, tumor growth, and stemness gene expression using a Lck targeted inhibitor.

Zepecki JP, Snyder KM, Moreno MM, Fajardo E, Fiser A, Ness J, Sarkar A, Toms SA, Tapinos N.

Oncogene. 2019 Mar;38(10):1734-1750. doi: 10.1038/s41388-018-0546-z. Epub 2018 Oct 23.

7.

The choice of sequence homologs included in multiple sequence alignments has a dramatic impact on evolutionary conservation analysis.

Gil N, Fiser A.

Bioinformatics. 2019 Jan 1;35(1):12-19. doi: 10.1093/bioinformatics/bty523.

PMID:
29947739
8.

Genetic resistance to purine nucleoside phosphorylase inhibition in Plasmodium falciparum.

Ducati RG, Namanja-Magliano HA, Harijan RK, Fajardo JE, Fiser A, Daily JP, Schramm VL.

Proc Natl Acad Sci U S A. 2018 Feb 27;115(9):2114-2119. doi: 10.1073/pnas.1525670115. Epub 2018 Feb 12.

9.

Hereditary folate malabsorption due to a mutation in the external gate of the proton-coupled folate transporter SLC46A1.

Aluri S, Zhao R, Lubout C, Goorden SMI, Fiser A, Goldman ID.

Blood Adv. 2018 Jan 5;2(1):61-68. doi: 10.1182/bloodadvances.2017012690. eCollection 2018 Jan 9.

10.

Identifying functionally informative evolutionary sequence profiles.

Gil N, Fiser A.

Bioinformatics. 2018 Apr 15;34(8):1278-1286. doi: 10.1093/bioinformatics/btx779.

11.

Substituted-cysteine accessibility and cross-linking identify an exofacial cleft in the 7th and 8th helices of the proton-coupled folate transporter (SLC46A1).

Aluri S, Zhao R, Fiser A, Goldman ID.

Am J Physiol Cell Physiol. 2018 Mar 1;314(3):C289-C296. doi: 10.1152/ajpcell.00215.2017. Epub 2017 Nov 22.

12.

Residues in the eighth transmembrane domain of the proton-coupled folate transporter (SLC46A1) play an important role in defining the aqueous translocation pathway and in folate substrate binding.

Aluri S, Zhao R, Fiser A, Goldman ID.

Biochim Biophys Acta Biomembr. 2017 Nov;1859(11):2193-2202. doi: 10.1016/j.bbamem.2017.08.006. Epub 2017 Aug 9.

13.

HIV-Tat regulates macrophage gene expression in the context of neuroAIDS.

Carvallo L, Lopez L, Fajardo JE, Jaureguiberry-Bravo M, Fiser A, Berman JW.

PLoS One. 2017 Jun 22;12(6):e0179882. doi: 10.1371/journal.pone.0179882. eCollection 2017.

14.

ProtLID, a Residue-Based Pharmacophore Approach to Identify Cognate Protein Ligands in the Immunoglobulin Superfamily.

Yap EH, Fiser A.

Structure. 2016 Dec 6;24(12):2217-2226. doi: 10.1016/j.str.2016.10.012. Epub 2016 Nov 23.

15.

Control of mitochondrial function and cell growth by the atypical cadherin Fat1.

Cao LL, Riascos-Bernal DF, Chinnasamy P, Dunaway CM, Hou R, Pujato MA, O'Rourke BP, Miskolci V, Guo L, Hodgson L, Fiser A, Sibinga NE.

Nature. 2016 Nov 24;539(7630):575-578. doi: 10.1038/nature20170. Epub 2016 Nov 9.

16.

Experience-dependent spatial expectations in mouse visual cortex.

Fiser A, Mahringer D, Oyibo HK, Petersen AV, Leinweber M, Keller GB.

Nat Neurosci. 2016 Dec;19(12):1658-1664. doi: 10.1038/nn.4385. Epub 2016 Sep 12.

PMID:
27618309
17.

Development of a motif-based topology-independent structure comparison method to identify evolutionarily related folds.

Dybas JM, Fiser A.

Proteins. 2016 Dec;84(12):1859-1874. doi: 10.1002/prot.25169. Epub 2016 Oct 11.

18.

2-(m-Azidobenzoyl)taxol binds differentially to distinct β-tubulin isotypes.

Yang CH, Yap EH, Xiao H, Fiser A, Horwitz SB.

Proc Natl Acad Sci U S A. 2016 Oct 4;113(40):11294-11299. Epub 2016 Sep 20.

19.

Role of the tryptophan residues in proton-coupled folate transporter (PCFT-SLC46A1) function.

Najmi M, Zhao R, Fiser A, Goldman ID.

Am J Physiol Cell Physiol. 2016 Jul 1;311(1):C150-7. doi: 10.1152/ajpcell.00084.2016. Epub 2016 Jun 1.

20.

Nuc-ErbB3 regulates H3K27me3 levels and HMT activity to establish epigenetic repression during peripheral myelination.

Ness JK, Skiles AA, Yap EH, Fajardo EJ, Fiser A, Tapinos N.

Glia. 2016 Jun;64(6):977-92. doi: 10.1002/glia.22977. Epub 2016 Mar 28.

21.

Identification of an Extracellular Gate for the Proton-coupled Folate Transporter (PCFT-SLC46A1) by Cysteine Cross-linking.

Zhao R, Najmi M, Fiser A, Goldman ID.

J Biol Chem. 2016 Apr 8;291(15):8162-72. doi: 10.1074/jbc.M115.693929. Epub 2016 Feb 16.

22.

Modularity of Protein Folds as a Tool for Template-Free Modeling of Structures.

Vallat B, Madrid-Aliste C, Fiser A.

PLoS Comput Biol. 2015 Aug 7;11(8):e1004419. doi: 10.1371/journal.pcbi.1004419. eCollection 2015 Aug.

23.

Buprenorphine decreases the CCL2-mediated chemotactic response of monocytes.

Carvallo L, Lopez L, Che FY, Lim J, Eugenin EA, Williams DW, Nieves E, Calderon TM, Madrid-Aliste C, Fiser A, Weiss L, Angeletti RH, Berman JW.

J Immunol. 2015 Apr 1;194(7):3246-58. doi: 10.4049/jimmunol.1302647. Epub 2015 Feb 25.

24.

Identification of Tyr residues that enhance folate substrate binding and constrain oscillation of the proton-coupled folate transporter (PCFT-SLC46A1).

Visentin M, Unal ES, Najmi M, Fiser A, Zhao R, Goldman ID.

Am J Physiol Cell Physiol. 2015 Apr 15;308(8):C631-41. doi: 10.1152/ajpcell.00238.2014. Epub 2015 Jan 21.

25.

Expression, Clinical Significance, and Receptor Identification of the Newest B7 Family Member HHLA2 Protein.

Janakiram M, Chinai JM, Fineberg S, Fiser A, Montagna C, Medavarapu R, Castano E, Jeon H, Ohaegbulam KC, Zhao R, Zhao A, Almo SC, Sparano JA, Zang X.

Clin Cancer Res. 2015 May 15;21(10):2359-66. doi: 10.1158/1078-0432.CCR-14-1495. Epub 2014 Dec 30.

26.

α-Synuclein-induced dopaminergic neurodegeneration in a rat model of Parkinson's disease occurs independent of ATP13A2 (PARK9).

Daniel G, Musso A, Tsika E, Fiser A, Glauser L, Pletnikova O, Schneider BL, Moore DJ.

Neurobiol Dis. 2015 Jan;73:229-43. doi: 10.1016/j.nbd.2014.10.007. Epub 2014 Oct 18.

PMID:
25461191
27.

Prediction of DNA binding motifs from 3D models of transcription factors; identifying TLX3 regulated genes.

Pujato M, Kieken F, Skiles AA, Tapinos N, Fiser A.

Nucleic Acids Res. 2014 Dec 16;42(22):13500-12. doi: 10.1093/nar/gku1228. Epub 2014 Nov 26.

28.

A word of caution about biological inference - Revisiting cysteine covalent state predictions.

Tüdős E, Mészáros B, Fiser A, Simon I.

FEBS Open Bio. 2014 Mar 12;4:310-4. doi: 10.1016/j.fob.2014.03.003. eCollection 2014.

29.

Parkinson's disease-linked mutations in VPS35 induce dopaminergic neurodegeneration.

Tsika E, Glauser L, Moser R, Fiser A, Daniel G, Sheerin UM, Lees A, Troncoso JC, Lewis PA, Bandopadhyay R, Schneider BL, Moore DJ.

Hum Mol Genet. 2014 Sep 1;23(17):4621-38. doi: 10.1093/hmg/ddu178. Epub 2014 Apr 15.

30.

Gene regulation by PAX6: structural-functional correlations of missense mutants and transcriptional control of Trpm3/miR-204.

Xie Q, Ung D, Khafizov K, Fiser A, Cvekl A.

Mol Vis. 2014 Mar 6;20:270-82. eCollection 2014.

31.

Trends in structural coverage of the protein universe and the impact of the Protein Structure Initiative.

Khafizov K, Madrid-Aliste C, Almo SC, Fiser A.

Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):3733-8. doi: 10.1073/pnas.1321614111. Epub 2014 Feb 24. Erratum in: Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):E1159.

32.

Functional clustering of immunoglobulin superfamily proteins with protein-protein interaction information calibrated hidden Markov model sequence profiles.

Yap EH, Rosche T, Almo S, Fiser A.

J Mol Biol. 2014 Feb 20;426(4):945-61. doi: 10.1016/j.jmb.2013.11.009. Epub 2013 Nov 16.

33.

Modeling proteins using a super-secondary structure library and NMR chemical shift information.

Menon V, Vallat BK, Dybas JM, Fiser A.

Structure. 2013 Jun 4;21(6):891-9. doi: 10.1016/j.str.2013.04.012. Epub 2013 May 16.

34.

Functional classification of immune regulatory proteins.

Rubinstein R, Ramagopal UA, Nathenson SG, Almo SC, Fiser A.

Structure. 2013 May 7;21(5):766-76. doi: 10.1016/j.str.2013.02.022. Epub 2013 Apr 11.

35.

Role of the fourth transmembrane domain in proton-coupled folate transporter function as assessed by the substituted cysteine accessibility method.

Shin DS, Zhao R, Fiser A, Goldman ID.

Am J Physiol Cell Physiol. 2013 Jun 15;304(12):C1159-67. doi: 10.1152/ajpcell.00353.2012. Epub 2013 Apr 3.

36.

Crystal structure of human Karyopherin β2 bound to the PY-NLS of Saccharomyces cerevisiae Nab2.

Soniat M, Sampathkumar P, Collett G, Gizzi AS, Banu RN, Bhosle RC, Chamala S, Chowdhury S, Fiser A, Glenn AS, Hammonds J, Hillerich B, Khafizov K, Love JD, Matikainen B, Seidel RD, Toro R, Rajesh Kumar P, Bonanno JB, Chook YM, Almo SC.

J Struct Funct Genomics. 2013 Jun;14(2):31-5. doi: 10.1007/s10969-013-9150-1. Epub 2013 Mar 28.

37.

Protein structure based prediction of catalytic residues.

Fajardo JE, Fiser A.

BMC Bioinformatics. 2013 Feb 22;14:63. doi: 10.1186/1471-2105-14-63.

38.

The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks.

Pujato M, MacCarthy T, Fiser A, Bergman A.

PLoS Comput Biol. 2013;9(1):e1002865. doi: 10.1371/journal.pcbi.1002865. Epub 2013 Jan 3.

39.

A modular perspective of protein structures: application to fragment based loop modeling.

Fernandez-Fuentes N, Fiser A.

Methods Mol Biol. 2013;932:141-58. doi: 10.1007/978-1-62703-065-6_9.

40.

Certain protein transducing agents convert translocated proteins into cell killers.

Tcherniuk S, Fiser AL, Derouazi M, Toussaint B, Wang Y, Wojtal I, Kondo E, Szolajska E, Chroboczek J.

Acta Biochim Pol. 2012;59(3):433-9. Epub 2012 Sep 3.

41.

Functional roles of the A335 and G338 residues of the proton-coupled folate transporter (PCFT-SLC46A1) mutated in hereditary folate malabsorption.

Shin DS, Zhao R, Fiser A, Goldman DI.

Am J Physiol Cell Physiol. 2012 Oct 15;303(8):C834-42. doi: 10.1152/ajpcell.00171.2012. Epub 2012 Jul 25.

42.

Identification of a functionally critical GXXG motif and its relationship to the folate binding site of the proton-coupled folate transporter (PCFT-SLC46A1).

Zhao R, Shin DS, Fiser A, Goldman ID.

Am J Physiol Cell Physiol. 2012 Sep 15;303(6):C673-81. doi: 10.1152/ajpcell.00123.2012. Epub 2012 Jul 11.

43.

Metabolomic analysis of patient plasma yields evidence of plant-like α-linolenic acid metabolism in Plasmodium falciparum.

Lakshmanan V, Rhee KY, Wang W, Yu Y, Khafizov K, Fiser A, Wu P, Ndir O, Mboup S, Ndiaye D, Daily JP.

J Infect Dis. 2012 Jul 15;206(2):238-48. doi: 10.1093/infdis/jis339. Epub 2012 May 7.

44.

A P425R mutation of the proton-coupled folate transporter causing hereditary folate malabsorption produces a highly selective alteration in folate binding.

Shin DS, Zhao R, Yap EH, Fiser A, Goldman ID.

Am J Physiol Cell Physiol. 2012 May 1;302(9):C1405-12. doi: 10.1152/ajpcell.00435.2011. Epub 2012 Feb 15.

45.

Photo-assisted peptide enrichment in protein complex cross-linking analysis of a model homodimeric protein using mass spectrometry.

Yan F, Che FY, Nieves E, Weiss LM, Angeletti RH, Fiser A.

Proteomics. 2011 Oct;11(20):4109-15. doi: 10.1002/pmic.201100015. Epub 2011 Sep 6.

46.

Frozen tissue can provide reproducible proteomic results of subcellular fractionation.

Lim J, Menon V, Bitzer M, Miller LM, Madrid-Aliste C, Weiss LM, Fiser A, Angeletti RH.

Anal Biochem. 2011 Nov 1;418(1):78-84. doi: 10.1016/j.ab.2011.06.045. Epub 2011 Jul 13.

47.

A nuclear variant of ErbB3 receptor tyrosine kinase regulates ezrin distribution and Schwann cell myelination.

Adilakshmi T, Ness-Myers J, Madrid-Aliste C, Fiser A, Tapinos N.

J Neurosci. 2011 Mar 30;31(13):5106-19. doi: 10.1523/JNEUROSCI.5635-10.2011.

48.

VISTA, a novel mouse Ig superfamily ligand that negatively regulates T cell responses.

Wang L, Rubinstein R, Lines JL, Wasiuk A, Ahonen C, Guo Y, Lu LF, Gondek D, Wang Y, Fava RA, Fiser A, Almo S, Noelle RJ.

J Exp Med. 2011 Mar 14;208(3):577-92. doi: 10.1084/jem.20100619. Epub 2011 Mar 7.

49.

Hallmarks of molecular action of microtubule stabilizing agents: effects of epothilone B, ixabepilone, peloruside A, and laulimalide on microtubule conformation.

Khrapunovich-Baine M, Menon V, Yang CP, Northcote PT, Miller JH, Angeletti RH, Fiser A, Horwitz SB, Xiao H.

J Biol Chem. 2011 Apr 1;286(13):11765-78. doi: 10.1074/jbc.M110.162214. Epub 2011 Jan 18.

50.

A biochemical mechanism for the oncogenic potential of the p110beta catalytic subunit of phosphoinositide 3-kinase.

Dbouk HA, Pang H, Fiser A, Backer JM.

Proc Natl Acad Sci U S A. 2010 Nov 16;107(46):19897-902. doi: 10.1073/pnas.1008739107. Epub 2010 Oct 28.

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